SoyBase
SoyBase transitions to NEW site on 10/1/2024
Integrating Genetics and Genomics to Advance Soybean Research
SoyBase
SoyBase transitions to NEW site on 10/1/2024
|
A previous version of this gene model can be found here:
| Database ID | Annotation Type | Annotation Description | Annotation Source | Match Score | Evidence Code |
|---|---|---|---|---|---|
| AT3G01850.1 | AT | Aldolase-type TIM barrel family protein | JGI | N/A | IEA |
| GO:0005975 | GO-bp | carbohydrate metabolic process | EnsemblGenomes | N/A | IEA |
| GO:0005975 | GO-bp | carbohydrate metabolic process | JGI | N/A | IEA |
| GO:0006098 | GO-bp | pentose-phosphate shunt | EnsemblGenomes | N/A | IEA |
| GO:0008152 | GO-bp | metabolic process | EnsemblGenomes | N/A | IEA |
| GO:0009052 | GO-bp | pentose-phosphate shunt, non-oxidative branch | EnsemblGenomes | N/A | IEA |
| GO:0019323 | GO-bp | pentose catabolic process | EnsemblGenomes | N/A | IEA |
| GO:0044262 | GO-bp | cellular carbohydrate metabolic process | EnsemblGenomes | N/A | IEA |
| GO:0005829 | GO-cc | cytosol | EnsemblGenomes | N/A | IEA |
| GO:0003824 | GO-mf | catalytic activity | EnsemblGenomes | N/A | IEA |
| GO:0004750 | GO-mf | ribulose-phosphate 3-epimerase activity | EnsemblGenomes | N/A | IEA |
| GO:0016853 | GO-mf | isomerase activity | EnsemblGenomes | N/A | IEA |
| GO:0016857 | GO-mf | racemase and epimerase activity, acting on carbohydrates and derivatives | EnsemblGenomes | N/A | IEA |
| GO:0016857 | GO-mf | racemase and epimerase activity, acting on carbohydrates and derivatives | JGI | N/A | IEA |
| GO:0046872 | GO-mf | metal ion binding | EnsemblGenomes | N/A | IEA |
| KOG3111 | KOG | D-ribulose-5-phosphate 3-epimerase | JGI | N/A | IEA |
| PTHR11749 | Panther | RIBULOSE-5-PHOSPHATE-3-EPIMERASE | JGI | N/A | IEA |
| PF00834 | PFAM | Ribulose-phosphate 3 epimerase family | JGI | N/A | IEA |
| CALVIN-PWY | SoyCyc9 | Calvin-Benson-Bassham cycle | Plant Metabolic Network | ISS | |
| NONOXIPENT-PWY | SoyCyc9 | pentose phosphate pathway (non-oxidative branch) | Plant Metabolic Network | ISS | |
| PENTOSE-P-PWY | SoyCyc9 | pentose phosphate pathway | Plant Metabolic Network | ISS | |
| PHOTOALL-PWY | SoyCyc9 | oxygenic photosynthesis | Plant Metabolic Network | ISS | |
| PWY-5723 | SoyCyc9 | Rubisco shunt | Plant Metabolic Network | ISS | |
| GN7V-44965 | SoyCyc9-rxn | ribulose-phosphate 3-epimerase | Plant Metabolic Network | ISS |
|
Glyma.16G059000 not represented in the dataset |
Glyma.16G059000 not represented in the dataset |
| Libault et al. 2010, Plant Phys 152(2):541-552. Complete Transcriptome of the Soybean Root Hair Cell, a Single-Cell Model, and Its Alteration in Response to Bradyrhizobium japonicum Infection |
Severin et al. 2010, BMC Plant Biology 10:160 RNA-Seq Atlas of Glycine max: A guide to the soybean transcriptome |
Gene families from Phytozome are displayed using the PhyloTree viewer developed by LIS.
Gene information in GlycineMine developed by LIS.
Gene families from PhyloGenes.
| Paralog | Evidence | Comments |
|---|---|---|
| Glyma.19g088400 | IGC | Paralogs in soybean determined by Steven Cannon using BLAST, DAGChainer, PAML, and selection of gene pairs from synteny blocks with median Ks values of less than 0.35. |
| Corresponding Name | Annotation Version | Evidence | Comments |
|---|---|---|---|
| Glyma.16g059000 | Wm82.a4.v1 | ISS | As supplied by JGI |
| Glyma16g06360 | Wm82.a1.v1.1 | IGC | As supplied by JGI |
>Glyma.16g059000.1 sequence-type=CDS polypeptide=Glyma.16g059000.1.p locus=Glyma.16g059000 ID=Glyma.16g059000.1.Wm82.a2.v1 annot-version=Wm82.a2.v1 ATGGGAATGACACCGAAAATAGCTCCTTCGATGCTCTCTTCCGACTTCGCCAATTTGGCTTCCGAGGCTCAGCGCATGCTCCACTTCGGCGCCGATTGGCTCCACATGGACATCATGGATGGGCATTTTGTCCCCAATTTAACTATTGGCGCTCCAGTTATTGAAAGTTTGAGAAAGCACACAAAGGCATATTTGGATTGTCACCTTATGGTTACAAATCCTCTTGATTATGTTGAACCCTTGGCAAAAGCTGGTGCTTCTGGTTTTACATTTCACGTAGAGACATCAAAAGATAACTGGAAAGAACTTATCCAAAGAATCAAGTCACATGGCATGATTCCTGGTGTAGCATTAAAGCCTGGGACCCCCGTTGGAGAGGTTTATCCTCTGGTGGAAGCCGAAAATCCTGTGGAAATGGTTCTTGTGATGACTGTAGAACCTGGATTCGGAGGACAAAAATTTATGGCAGAGACGATGGATAAAGTACGTATACTTAGGAAGAAGTATCCATCACTTGACATAGAGGTTGATGGTGGTTTAGGGCCTTCAACCATAGACGTGGCCGCATCAGCAGGGGCAAATTGCATTGTTGCTGGAAGTTCTGTTTTTGGTGCACCTGAGCCAGCTCAAGTAATATCCTTACTGAGGAGTTCTGTTGAGAAAGCCCAGCAAACCTCGATACAGTAA
>Glyma.16g059000.1.p sequence-type=predicted peptide transcript=Glyma.16g059000.1 locus=Glyma.16g059000 ID=Glyma.16g059000.1.Wm82.a2.v1 annot-version=Wm82.a2.v1 MGMTPKIAPSMLSSDFANLASEAQRMLHFGADWLHMDIMDGHFVPNLTIGAPVIESLRKHTKAYLDCHLMVTNPLDYVEPLAKAGASGFTFHVETSKDNWKELIQRIKSHGMIPGVALKPGTPVGEVYPLVEAENPVEMVLVMTVEPGFGGQKFMAETMDKVRILRKKYPSLDIEVDGGLGPSTIDVAASAGANCIVAGSSVFGAPEPAQVISLLRSSVEKAQQTSIQ*
| Funded by the USDA-ARS. Developed by the USDA-ARS SoyBase and Legume Clade Database group at the Iowa State University, Ames, IA | ||
|
|
|
